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Conserved domains on  [gi|19919168|gb|AAM08177|]
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ribulose 1,5-bisphosphate carboxylase/oxygenase small subunit, partial (chloroplast) [Antithamnion kylinii]

Protein Classification

ribulose bisphosphate carboxylase small subunit( domain architecture ID 10000108)

small subunit of ribulose bisphosphate carboxylase, which catalyzes two reactions: the carboxylation of D-ribulose 1,5-bisphosphate, the primary event in carbon dioxide fixation, as well as the oxidative fragmentation of the pentose substrate

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
rbcS CHL00130
ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed
 1-131 3.60e-90

ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed


:

Pssm-ID: 177052  Cd Length: 138  Bit Score: 257.38  E-value: 3.60e-90
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19919168    1 MRLTQGTFSFLPDFTDEQITKQIEYAISQNWAINIEYTEDPHPRNNYWELWGLPLFDIKDTATVMYEVNNCRKAHSSVYI 80
Cdd:CHL00130   1 MRLTQGTFSFLPDLTDQQIEKQIQYAISKGWALNVEWTDDPHPRNSYWELWGLPLFDVKDPAAVMFEINECRKQKPNGYI 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 19919168   81 KINAFDNTRGVESCVLSFIINRPAHEPGFELIRSEDIGRNQKYTFRSYATE 131
Cdd:CHL00130  81 KVNAFDASRGVESCVLSFIVNRPANEPGFYLERTEGEGRFIRYTIHSYATA 131
 
Name Accession Description Interval E-value
rbcS CHL00130
ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed
 1-131 3.60e-90

ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed


Pssm-ID: 177052  Cd Length: 138  Bit Score: 257.38  E-value: 3.60e-90
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19919168    1 MRLTQGTFSFLPDFTDEQITKQIEYAISQNWAINIEYTEDPHPRNNYWELWGLPLFDIKDTATVMYEVNNCRKAHSSVYI 80
Cdd:CHL00130   1 MRLTQGTFSFLPDLTDQQIEKQIQYAISKGWALNVEWTDDPHPRNSYWELWGLPLFDVKDPAAVMFEINECRKQKPNGYI 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 19919168   81 KINAFDNTRGVESCVLSFIINRPAHEPGFELIRSEDIGRNQKYTFRSYATE 131
Cdd:CHL00130  81 KVNAFDASRGVESCVLSFIVNRPANEPGFYLERTEGEGRFIRYTIHSYATA 131
RuBisCO_small cd03527
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a ...
 3-103 3.33e-55

Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits.


Pssm-ID: 239603  Cd Length: 99  Bit Score: 167.43  E-value: 3.33e-55
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19919168   3 LTQGTFSFLPDFTDEQITKQIEYAISQNWAINIEYTEDPHPRNNYWELWGLPLFDIKDTATVMYEVNNCRKAHSSVYIKI 82
Cdd:cd03527   1 RTFETFSYLPPLTDEQIAKQIDYIISNGWAPCLEFTEPEHYDNRYWTMWKLPMFGCTDPAQVLREIEACRKAYPDHYVRV 80

                        90       100
                ....*....|....*....|.
gi 19919168  83 NAFDNTRgvESCVLSFIINRP 103
Cdd:cd03527  81 VGFDNYK--QSQCMSFIVHRP 99
RuBisCO_small pfam00101
Ribulose bisphosphate carboxylase, small chain;
5-103 5.25e-55

Ribulose bisphosphate carboxylase, small chain;


Pssm-ID: 425465  Cd Length: 97  Bit Score: 166.90  E-value: 5.25e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19919168     5 QGTFSFLPDFTDEQITKQIEYAISQNWAINIEYTEDPHPRNNYWELWGLPLFDIKDTATVMYEVNNCRKAHSSVYIKINA 84
Cdd:pfam00101   1 FETFSYLPPLTDEQIAKQVQYILSQGWIPGIEFTDDPHPRNRYWTMWKLPMFGCTDPAQVLAELEACRKAYPNHYIRLIG 80

                          90
                  ....*....|....*....
gi 19919168    85 FDNTRgvESCVLSFIINRP 103
Cdd:pfam00101  81 FDNYR--QSQVMSFIVQRP 97
RbcS COG4451
Ribulose bisphosphate carboxylase small subunit [Carbohydrate transport and metabolism];
1-104 5.20e-54

Ribulose bisphosphate carboxylase small subunit [Carbohydrate transport and metabolism];


Pssm-ID: 443549  Cd Length: 102  Bit Score: 164.61  E-value: 5.20e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19919168   1 MRLTQGTFSFLPDFTDEQITKQIEYAISQNWAINIEYTEDPHPRNNYWELWGLPLFDIKDTATVMYEVNNCRKAHSSVYI 80
Cdd:COG4451   1 MSRTQETFSYLPPLLDAEIVAQVRYLLAQGWAIGIEHADDRRFRTTYWQMWKLPMFDSTDEAEVLAELEACRKEHPGEYV 80

                        90       100
                ....*....|....*....|....
gi 19919168  81 KINAFDNTRgvESCVLSFIINRPA 104
Cdd:COG4451  81 RLIGIDPKA--KRRVLEFIVQRPN 102
RuBisCO_small smart00961
Ribulose bisphosphate carboxylase, small chain; RuBisCO (ribulose-1,5-bisphosphate carboxylase ...
 4-103 1.42e-41

Ribulose bisphosphate carboxylase, small chain; RuBisCO (ribulose-1,5-bisphosphate carboxylase/oxygenase) is a bifunctional enzyme that catalyses both the carboxylation and oxygenation of ribulose-1,5-bisphosphate (RuBP), thus fixing carbon dioxide as the first step of the Calvin cycle. RuBisCO is the major protein in the stroma of chloroplasts, and in higher plants exists as a complex of 8 large and 8 small subunits. The function of the small subunit is unknown. While the large subunit is coded for by a single gene, the small subunit is coded for by several different genes, which are distributed in a tissue specific manner. They are transcriptionally regulated by light receptor phytochrome. which results in RuBisCO being more abundant during the day when it is required.


Pssm-ID: 198029  Cd Length: 96  Bit Score: 133.04  E-value: 1.42e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19919168      4 TQGTFSFLPDFTDEQITKQIEYAISQNWAINIEYTEDPHPRNNYWElwGLPLFDIKDTATVMYEVNNCRKAHSSVYIKIN 83
Cdd:smart00961   1 TQETFSYLPPLTDAEIVAQVRYLLAQGYAIGVEHADPRRFRTSSWQ--KLPMFGATDAAEVLAELEACLAEHPGEYVRLI 78

                           90       100
                   ....*....|....*....|
gi 19919168     84 AFDNTRgvESCVLSFIINRP 103
Cdd:smart00961  79 GIDPKA--KRRVLEFIIQRP 96
 
Name Accession Description Interval E-value
rbcS CHL00130
ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed
 1-131 3.60e-90

ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed


Pssm-ID: 177052  Cd Length: 138  Bit Score: 257.38  E-value: 3.60e-90
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19919168    1 MRLTQGTFSFLPDFTDEQITKQIEYAISQNWAINIEYTEDPHPRNNYWELWGLPLFDIKDTATVMYEVNNCRKAHSSVYI 80
Cdd:CHL00130   1 MRLTQGTFSFLPDLTDQQIEKQIQYAISKGWALNVEWTDDPHPRNSYWELWGLPLFDVKDPAAVMFEINECRKQKPNGYI 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 19919168   81 KINAFDNTRGVESCVLSFIINRPAHEPGFELIRSEDIGRNQKYTFRSYATE 131
Cdd:CHL00130  81 KVNAFDASRGVESCVLSFIVNRPANEPGFYLERTEGEGRFIRYTIHSYATA 131
RuBisCO_small cd03527
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a ...
 3-103 3.33e-55

Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits.


Pssm-ID: 239603  Cd Length: 99  Bit Score: 167.43  E-value: 3.33e-55
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19919168   3 LTQGTFSFLPDFTDEQITKQIEYAISQNWAINIEYTEDPHPRNNYWELWGLPLFDIKDTATVMYEVNNCRKAHSSVYIKI 82
Cdd:cd03527   1 RTFETFSYLPPLTDEQIAKQIDYIISNGWAPCLEFTEPEHYDNRYWTMWKLPMFGCTDPAQVLREIEACRKAYPDHYVRV 80

                        90       100
                ....*....|....*....|.
gi 19919168  83 NAFDNTRgvESCVLSFIINRP 103
Cdd:cd03527  81 VGFDNYK--QSQCMSFIVHRP 99
RuBisCO_small pfam00101
Ribulose bisphosphate carboxylase, small chain;
5-103 5.25e-55

Ribulose bisphosphate carboxylase, small chain;


Pssm-ID: 425465  Cd Length: 97  Bit Score: 166.90  E-value: 5.25e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19919168     5 QGTFSFLPDFTDEQITKQIEYAISQNWAINIEYTEDPHPRNNYWELWGLPLFDIKDTATVMYEVNNCRKAHSSVYIKINA 84
Cdd:pfam00101   1 FETFSYLPPLTDEQIAKQVQYILSQGWIPGIEFTDDPHPRNRYWTMWKLPMFGCTDPAQVLAELEACRKAYPNHYIRLIG 80

                          90
                  ....*....|....*....
gi 19919168    85 FDNTRgvESCVLSFIINRP 103
Cdd:pfam00101  81 FDNYR--QSQVMSFIVQRP 97
RbcS COG4451
Ribulose bisphosphate carboxylase small subunit [Carbohydrate transport and metabolism];
1-104 5.20e-54

Ribulose bisphosphate carboxylase small subunit [Carbohydrate transport and metabolism];


Pssm-ID: 443549  Cd Length: 102  Bit Score: 164.61  E-value: 5.20e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19919168   1 MRLTQGTFSFLPDFTDEQITKQIEYAISQNWAINIEYTEDPHPRNNYWELWGLPLFDIKDTATVMYEVNNCRKAHSSVYI 80
Cdd:COG4451   1 MSRTQETFSYLPPLLDAEIVAQVRYLLAQGWAIGIEHADDRRFRTTYWQMWKLPMFDSTDEAEVLAELEACRKEHPGEYV 80

                        90       100
                ....*....|....*....|....
gi 19919168  81 KINAFDNTRgvESCVLSFIINRPA 104
Cdd:COG4451  81 RLIGIDPKA--KRRVLEFIVQRPN 102
RuBisCO_small smart00961
Ribulose bisphosphate carboxylase, small chain; RuBisCO (ribulose-1,5-bisphosphate carboxylase ...
 4-103 1.42e-41

Ribulose bisphosphate carboxylase, small chain; RuBisCO (ribulose-1,5-bisphosphate carboxylase/oxygenase) is a bifunctional enzyme that catalyses both the carboxylation and oxygenation of ribulose-1,5-bisphosphate (RuBP), thus fixing carbon dioxide as the first step of the Calvin cycle. RuBisCO is the major protein in the stroma of chloroplasts, and in higher plants exists as a complex of 8 large and 8 small subunits. The function of the small subunit is unknown. While the large subunit is coded for by a single gene, the small subunit is coded for by several different genes, which are distributed in a tissue specific manner. They are transcriptionally regulated by light receptor phytochrome. which results in RuBisCO being more abundant during the day when it is required.


Pssm-ID: 198029  Cd Length: 96  Bit Score: 133.04  E-value: 1.42e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19919168      4 TQGTFSFLPDFTDEQITKQIEYAISQNWAINIEYTEDPHPRNNYWElwGLPLFDIKDTATVMYEVNNCRKAHSSVYIKIN 83
Cdd:smart00961   1 TQETFSYLPPLTDAEIVAQVRYLLAQGYAIGVEHADPRRFRTSSWQ--KLPMFGATDAAEVLAELEACLAEHPGEYVRLI 78

                           90       100
                   ....*....|....*....|
gi 19919168     84 AFDNTRgvESCVLSFIINRP 103
Cdd:smart00961  79 GIDPKA--KRRVLEFIIQRP 96
PLN02289 PLN02289
ribulose-bisphosphate carboxylase small chain
 7-104 5.10e-22

ribulose-bisphosphate carboxylase small chain


Pssm-ID: 215163 [Multi-domain]  Cd Length: 176  Bit Score: 85.69  E-value: 5.10e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19919168    7 TFSFLPDFTDEQITKQIEYAISQNWAINIEYTED---PHPRNN---------YWELWGLPLFDIKDTATVMYEVNNCRKA 74
Cdd:PLN02289  69 TLSYLPDLTDEELAKEVDYLLRNKWVPCLEFELEhgfVYREHHrspgyydgrYWTMWKLPMFGCTDSAQVLKELEEAKKA 148

                         90       100       110
                 ....*....|....*....|....*....|
gi 19919168   75 HSSVYIKINAFDNTRGVEsCVlSFIINRPA 104
Cdd:PLN02289 149 YPNAFIRIIGFDNTRQVQ-CI-SFIAYKPP 176
RuBisCO_small_like cd00307
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. ...
 16-103 1.23e-17

Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits. This superfamily also contains specific proteins from cyanobacteria. CcmM plays a role in a CO2 concentrating mechanism, which cyanobacteria need to to overcome the low specificity of their Rubisco and fusions to Rubisco activase, a type of chaperone, which promotes and maintains the catalytic activity of Rubisco. CcmM contains an N-terminal carbonic anhydrase fused to four copies of the Rubisco-small subunit domain


Pssm-ID: 238187  Cd Length: 84  Bit Score: 71.92  E-value: 1.23e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19919168  16 DEQITKQIEYAISQNWAINIEYTEDphprNNYWELWGLPLFDI--KDTATVMYEVNNCRKAHSSVYIKINAFDNTrgVES 93
Cdd:cd00307   1 SEDVVEQVRQLLAQGYKIGLEHADA----RRFRTSSWQSCGPIegRSEAQVLAALEACLAEHPGEYVRLIGIDPK--AKR 74

                        90
                ....*....|
gi 19919168  94 CVLSFIINRP 103
Cdd:cd00307  75 RVLEIIIQRP 84
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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